Complete Genome Analysis of an Enterovirus EV-B83 Isolated in China

Tang, Jingjing; Li, Qiongfen; Tian, Bo; Zhang, Jie; Li, Kai; Ding, Zhuang; Lü, Lin

doi:10.1038/srep29432

Cited by 4 publications

(4 citation statements)

References 37 publications

(56 reference statements)

Supporting

Mentioning

Contrasting

Order By: Relevance

“…A phylogenetic tree constructed based on all available VP1 regions (633 nt in length) of EV-B83 illustrated an interesting phenomenon: the six Tibet EV-B83 strains form an independent evolutionary branch and are far from the two EV-B83 strains isolated from Yunnan, China, indicating that EV-B83 has two different evolutionary branches in China 10,25 . We divided all EV-B83 into four genotypes, A, B, C, and D, based on nucleotide diversity in the VP1 region.…”

Section: Discussionmentioning

confidence: 99%

Phylogenetic characteristics and molecular epidemiological analysis of novel enterovirus EV-B83 isolated from Tibet, China

Xiao

Zhang

Hong

et al. 2020

Sci Rep

View full text Add to dashboard Cite

Enterovirus B83 (EV-B83) is a new member of the enterovirus B group. Currently, there are only two full-length genomic sequences of EV-B83 in the GenBank database and few VP1 region sequences. The aetiology and epidemiology of EV-B83 is unclear. 24 stool specimens were collected from twelve AFP patients and 298 stool specimens were collected from 298 healthy children in support of polio eradication activities in Tibet in 1999. Two polioviruses (isolated by L20B cell) and one non-polio enterovirus (isolated by RD cell) were isolated from AFP patients and nine polioviruses (isolated by L20B cell) and 90 non-polio enteroviruses (isolated by RD cell) were isolated from health children. Through molecular typing, we confirmed that the six of non-polio enteroviruses belong to EV-B83. The sequence similarity between the VP1 region of the Tibet isolates and that of the EV-B83 prototype strain was 80%. The maximum-likelihood phylogenetic tree of the partial VP1 region in EV-B83 demonstrated that EV-B83 formed four genotypes globally during the evolution process. The six Tibet EV-B83 strains formed the D genotype alone. Recombination analysis of Tibet EV-B83 showed that CV-B4, CV-A9, EV-B80, and EV-B106 may act as recombinant donors in multiple regions. The serum neutralization test showed that the antibody-positive rate was 58.8% and GMT was 1:19.70, which was higher than the previously reported results of EV-B106 and EV-B80. Temperature sensitivity test results showed that the six Tibet EV-B83 strains were temperature-insensitive with stronger virulence and potential infectivity, which was consistent with the results of the serum neutralization test. This study enriched the genome-wide sequence, epidemiological characteristics, and provided basic data for the follow-up study of EV-B83. The genus Enterovirus of family Picornaviridae and order Picornavirales includes the species enterovirus (EV) A-L and rhinovirus (RV) A-C. The types that primarily cause human diseases are EV-AD and RV-A-C 1. Human enteroviruses include over 100 types, comprising poliovirus, coxsackievirus, echovirus, and some newly discovered enteroviruses. Human enterovirus can cause various infectious diseases, including acute flaccid paralysis (AFP); hand, foot, and mouth disease; acute aseptic meningitis; encephalitis; and others. Human enterovirus is a small, non-enveloped, single-stranded positive RNA virus of approximately 7500 nucleotides (nt), including a 5′-untranslated region (UTR), single long open reading frame (ORF), and 3′-UTR 2,3. The ORF translates into a polyprotein approximately 2200 amino acids long, which can be cleaved into three polyprotein precursors, P1, P2, and P3, and further divided into structural proteins VP4, VP2, VP3, and VP1 and non-structural proteins 2A, 2B, 2C, 3 A, 3B, 3C, and 3D. Based on the VP1 coding region sequence, human enteroviruses are classified into different types. This molecular typing method for type determination has gradually replaced the traditional neutralization test typing method 4-8 .

show abstract

Section: Discussionmentioning

confidence: 99%

Phylogenetic characteristics and molecular epidemiological analysis of novel enterovirus EV-B83 isolated from Tibet, China

Xiao

Zhang

Hong

et al. 2020

Sci Rep

View full text Add to dashboard Cite

show abstract

“…Additionally, a search was conducted for the VP1 sequence of EV-B83 in the GenBank database (as of 30 April 2023), removing sequences with many missing bases and low-quality sequences, resulting in 24 VP1 sequences of EV-B83. A limited number of EV-B83 strains have been isolated from six countries, namely the USA [ 8 ], France [ 9 ], India [ 10 , 11 , 12 , 13 ], Bangladesh [ 14 ], Cambodia [ 15 ], and China [ 16 , 17 , 18 ], since 1999. Muscle software (version 3.8.31_i86linux32) was used for alignment, and RAxML software (version 8.2.12) was used to construct a maximum likelihood (ML) tree of P1 , P2 , and P3 sequences [ 23 , 24 ]…”

Section: Methodsmentioning

confidence: 99%

“…After the identification of the EV-B83 prototype strain in 2007, some other EV-B83s were successively discovered and reported. As of May 31, 2023, there were 27 nucleotide sequences reported on GenBank which were identified in countries such as the USA [ 8 ], France [ 9 ], India [ 10 , 11 , 12 , 13 ], Bangladesh [ 14 ], Cambodia [ 15 ], and China [ 16 , 17 , 18 ]; however, only one full-length genome sequence (the prototype strain) was reported. This provides us with the opportunity to conduct in-depth research on its molecular epidemiology, which is still insufficient.…”

Section: Introductionmentioning

confidence: 99%

Molecular Characteristics of Enterovirus B83 Strain Isolated from a Patient with Acute Viral Myocarditis and Global Transmission Dynamics

Song

et al. 2023

Viruses

View full text Add to dashboard Cite

This study determined the global genetic diversity and transmission dynamics of enterovirus B83 (EV-B83) and proposed future disease surveillance directions. Blood samples were collected from a patient with viral myocarditis, and viral isolation was performed. The complete genome sequence of the viral isolate was obtained using Sanger sequencing. A dataset of 15 sequences (from three continents) that had sufficient time signals for Bayesian phylogenetic analysis was set up, and the genetic diversity and transmission dynamics of global EV-B83 were analyzed using bioinformatics methods, including evolutionary dynamics, recombination event analysis, and phylogeographic analysis. Here, we report the complete genome sequence of an EV-B83 strain (S17/YN/CHN/2004) isolated from a patient with acute viral myocarditis in Yunnan Province, China. All 15 EV-B83 strains clustered together in a phylogenetic tree, confirming the classification of these isolates as a single EV type, and the predicted time for the most recent common ancestor appeared in 1998. Recombinant signals were detected in the 5’-untranslated region and 2A–3D coding regions of the S17 genome. The phylogeographic analysis revealed multiple intercontinental transmission routes of EV-B83. This study indicates that EV-B83 is globally distributed. Our findings add to the publicly available EV-B83 genomic sequence data and deepen our understanding of EV-B83 epidemiology.

show abstract

“…Currently, based on the novel enterovirus isolates available in GenBank database, most novel enterovirus genotypes except for EV-D68 and EV-A71 have been isolated in the mainland of China, and the clinical manifestation of the vast majority of cases related to novel enterovirus is AFP ( Oberste et al, 2004 ; Bingjun et al, 2008 ; Tao et al, 2010 , 2013 , 2014a ; Xu et al, 2011a , b ; Sun et al, 2013 ; Hu et al, 2014 ; Liu et al, 2014 ; Lu et al, 2014 ; Tang et al, 2014 ; Zhang et al, 2014 , 2016 ; Fan et al, 2015 ; Song et al, 2017 ; Han et al, 2018 ; Huang et al, 2018 ; Wang et al, 2019 ). A considerable number of strains have been isolated from healthy people ( Wu et al, 2013 ; Hu et al, 2014 ; Tao et al, 2014b ; Fan et al, 2015 ; Tang et al, 2016 ; Zhang et al, 2016 ; Song et al, 2017 ; Han et al, 2018 ; Zhang et al, 2019 ), directly indicating that the population carries the novel enteroviruses and is at risk of developing the related diseases. Of these, a large number of cases arising from some novel enterovirus serotypes have already been reported in China, such as EV-B85 in Xinjiang ( Sun et al, 2013 ) (33 cases, 2011, AFP and his asymptomatic contacts), EV-A90 in Xinjiang ( Huang et al, 2018 ) (5 cases, 2011, AFP) and Shandong ( Tao et al, 2013 ) (3 cases, 2001, AFP), EV-C96 in Yunnan ( Bingjun et al, 2008 ) (18 cases, 1999-2010, AFP), and Jiangxi Province (13 cases, 2016, unknown), and EV-C104 in Shandong ( Xiang et al, 2013 ) (five cases, 2011–2012, lower respiratory tract infection).…”

Section: Introductionmentioning

confidence: 99%

Molecular Epidemiological, Serological, and Pathogenic Analysis of EV-B75 Associated With Acute Flaccid Paralysis Cases in Tibet, China

et al. 2021

View full text Add to dashboard Cite

Enterovirus B75 (EV-B75) is a newly identified serotype of the enterovirus B species. To date, only 112 cases related to EV-B75 have been reported worldwide, and research on EV-B75 is still limited with only two full-length genome sequences available in GenBank. The present study reported seven EV-B75 sequences from a child with acute flaccid paralysis and six asymptomatic close contacts in Shigatse, Tibet. Phylogenetic analysis revealed that the Tibetan strain was possibly imported from neighboring India. Seroepidemiological analyses indicated that EV-B75 has not yet caused a large-scale epidemic in Tibet. Similarity plots and boot scanning analyses revealed frequent intertypic recombination in the non-structural region of all seven Tibet EV-B75 strains. All seven Tibetan strains were temperature-sensitive, suggesting their poor transmissibility in the environment. Overall, though the seven Tibetan strains did not cause large-scale infection, prevention and control of the novel enterovirus cannot be underestimated.

show abstract

Complete Genome Analysis of an Enterovirus EV-B83 Isolated in China

Cited by 4 publications

References 37 publications

Phylogenetic characteristics and molecular epidemiological analysis of novel enterovirus EV-B83 isolated from Tibet, China

Phylogenetic characteristics and molecular epidemiological analysis of novel enterovirus EV-B83 isolated from Tibet, China

Molecular Characteristics of Enterovirus B83 Strain Isolated from a Patient with Acute Viral Myocarditis and Global Transmission Dynamics

Molecular Epidemiological, Serological, and Pathogenic Analysis of EV-B75 Associated With Acute Flaccid Paralysis Cases in Tibet, China

Contact Info

Product

Resources

About